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Development of a prognostic model for breast cancer patients based on intratumoral tumor-infiltrating lymphocytes using machine learning algorithms.

作者信息

Wu Xinyi, Li Chun

机构信息

Key Laboratory of Spine and Spinal Cord Injury Repair and Regeneration of Ministry of Education, Tongji Hospital, School of Medicine, Tongji University, 389 Xincun Road, Putuo District, Shanghai, 200065, China.

Tongji University Cancer Center, Shanghai Tenth People's Hospital, School of Medicine, Tongji University, Shanghai, 200092, China.

出版信息

Discov Oncol. 2025 May 14;16(1):762. doi: 10.1007/s12672-025-02585-1.


DOI:10.1007/s12672-025-02585-1
PMID:40366513
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12078914/
Abstract

BACKGROUND: Breast cancer remains a formidable global health challenge, with tumor-infiltrating lymphocytes (TILs) serving as pivotal biomarkers associated with disease progression, therapeutic response, and survival. While research typically focused on stromal TILs (sTILs), we hypothesize that intratumoral TILs (iTILs), which are in direct contact with tumor cells, have a more profound role in the immune-tumor interactions. In light of this, we have developed an iTIL-centric model for breast cancer patient stratification and prognostic prediction. METHODS: We sourced RNA-seq data and clinical profiles of breast cancer patients from The Cancer Genome Atlas (TCGA) and the Molecular Taxonomy of Breast Cancer International Consortium (METABRIC) to form our training dataset. Testing datasets, including GSE20685, GSE42568, GSE48390, and GSE88770, were retrieved from Gene Expression Omnibus (GEO). Employing consensus clustering and Weighted Correlation Network Analysis (WGCNA), we identified iTIL-associated hub genes. Our iTIL-centric signature was developed using a machine learning framework integrating 101 algorithms, validated across independent testing sets. Kaplan-Meier analysis and a nomogram model were utilized to evaluate the prognostic accuracy and clinical correlation of our model. GO and KEGG analyses elucidated the biological processes and pathways related to the iTIL signature. The immune profiling provided a comprehensive assessment of the immunological landscape. Moreover, potential drugs for high-risk patients were identified using CTRP v.2.0 and PRISM databases. RESULTS: Our study constructed a pioneering prognostic model based on iTIL-centric signature via a machine learning framework that evaluated 101 algorithm combinations. This model revealed significant differences in the immune landscape among stratified patient cohorts, and demonstrated robust predictive capabilities across multiple datasets. The model showed excellent predictive performance with area under the curve (AUC) values of 0.940, 0.959, and 0.973 for 3-, 5-, and 10-year survival predictions, respectively. Additionally, it was identified as a significant risk factor for overall survival (OS) in the univariate analysis, with a hazard ratio (HR) > 1 and a p-value < 0.001. CONCLUSIONS: Our prognostic model, founded on machining learning algorithms and anchored by an iTIL-centric signature, stands out as an invaluable tool for breast cancer patients, offering advanced prognostic insights and facilitating the development of personalized therapeutic strategies.

摘要
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/8bb4cb0e1e62/12672_2025_2585_Fig9_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/5f1e08e26480/12672_2025_2585_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/00e3beda8f5c/12672_2025_2585_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/cbd84291fb4d/12672_2025_2585_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/e688538fb357/12672_2025_2585_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/9cbbdbe04dd9/12672_2025_2585_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/6fd1cfa5d2cb/12672_2025_2585_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/5333469d30a2/12672_2025_2585_Fig7_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/e76fa82b7602/12672_2025_2585_Fig8_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/8bb4cb0e1e62/12672_2025_2585_Fig9_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/5f1e08e26480/12672_2025_2585_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/00e3beda8f5c/12672_2025_2585_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/cbd84291fb4d/12672_2025_2585_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/e688538fb357/12672_2025_2585_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/9cbbdbe04dd9/12672_2025_2585_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/6fd1cfa5d2cb/12672_2025_2585_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/5333469d30a2/12672_2025_2585_Fig7_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/e76fa82b7602/12672_2025_2585_Fig8_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5d87/12078914/8bb4cb0e1e62/12672_2025_2585_Fig9_HTML.jpg

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[1]
Development of a prognostic model for breast cancer patients based on intratumoral tumor-infiltrating lymphocytes using machine learning algorithms.

Discov Oncol. 2025-5-14

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本文引用的文献

[1]
Effect of adjuvant radiotherapy on overall survival and breast cancer-specific survival of patients with malignant phyllodes tumor of the breast in different age groups: a retrospective observational study based on SEER.

Radiat Oncol. 2024-5-21

[2]
Final Results of RIGHT Choice: Ribociclib Plus Endocrine Therapy Versus Combination Chemotherapy in Premenopausal Women With Clinically Aggressive Hormone Receptor-Positive/Human Epidermal Growth Factor Receptor 2-Negative Advanced Breast Cancer.

J Clin Oncol. 2024-8-10

[3]
Retrospective analysis of estrogen receptor (ER), progesterone receptor (PR), human epidermal growth factor receptor-2 (HER2), Ki67 changes and their clinical significance between primary breast cancer and metastatic tumors.

PeerJ. 2024

[4]
Tamoxifen Dose De-Escalation: An Effective Strategy for Reducing Adverse Effects?

Drugs. 2024-4

[5]
Properties of FDA-approved small molecule protein kinase inhibitors: A 2024 update.

Pharmacol Res. 2024-2

[6]
Busting the Breast Cancer with AstraZeneca's Gefitinib.

Adv Pharmacol Pharm Sci. 2023-12-4

[7]
CDK4/6 inhibition in hormone receptor-positive/HER2-negative breast cancer: Biological and clinical aspects.

Cytokine Growth Factor Rev. 2024-2

[8]
Leveraging senescence-oxidative stress co-relation to predict prognosis and drug sensitivity in breast invasive carcinoma.

Front Endocrinol (Lausanne). 2023

[9]
Identification of prognostic genes for breast cancer related to systemic lupus erythematosus by integrated analysis and machine learning.

Immunobiology. 2023-9

[10]
Intratumoral Tumor Infiltrating Lymphocytes (TILs) are Associated With Cell Proliferation and Better Survival But Not Always With Chemotherapy Response in Breast Cancer.

Ann Surg. 2023-10-1

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